Polygenic Score (PGS) ID: PGS001535

Predicted Trait
Reported Trait Use of sun/uv protection (Sometimes)
Mapped Trait(s) sun exposure measurement (EFO_0010729)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC20002267
Released in PGS Catalog: Nov. 25, 2021
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name GBE_BIN_FC20002267
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 309
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
269,577 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
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Study Identifiers
Sample Numbers
Sample Ancestry
Cohort(s)
Phenotype Definitions & Methods
Age of Study Participants
Participant Follow-up Time
Additional Ancestry Description
Additional Sample/Cohort Information
—
[
  • 94,861 cases
  • , 174,716 controls
]
EuropeanUKB———white British ancestryTraining + validation cohort (train_val)
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Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

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PGS Performance
Metric ID (PPM)
PGS Sample Set ID
(PSS)
Performance Source
Trait
PGS Effect Sizes
(per SD change)
Classification Metrics
Other Metrics
Covariates Included in the Model
PGS Performance:
Other Relevant Information
PPM005190PSS003830|
African Ancestry|
6,273 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Use of sun/uv protection (Sometimes)—AUROC: 0.5906 [0.57555, 0.60565]R²: 0.03109
Incremental AUROC (full-covars): -0.00144
PGS R2 (no covariates): 0.00136
PGS AUROC (no covariates): 0.48531 [0.46984, 0.50078]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
PPM005191PSS003831|
East Asian Ancestry|
1,652 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Use of sun/uv protection (Sometimes)—AUROC: 0.55282 [0.52505, 0.58059]R²: 0.01545
Incremental AUROC (full-covars): 0.00303
PGS R2 (no covariates): 0.00113
PGS AUROC (no covariates): 0.51387 [0.48597, 0.54177]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
PPM005192PSS003832|
European Ancestry|
24,868 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Use of sun/uv protection (Sometimes)—AUROC: 0.59511 [0.58776, 0.60245]R²: 0.03349
Incremental AUROC (full-covars): 0.0029
PGS R2 (no covariates): 0.00751
PGS AUROC (no covariates): 0.54353 [0.53602, 0.55103]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
PPM005193PSS003833|
South Asian Ancestry|
7,396 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Use of sun/uv protection (Sometimes)—AUROC: 0.55494 [0.54118, 0.5687]R²: 0.01063
Incremental AUROC (full-covars): -0.00239
PGS R2 (no covariates): 0.00017
PGS AUROC (no covariates): 0.49173 [0.47787, 0.50558]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
PPM005194PSS003834|
European Ancestry|
67,387 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Use of sun/uv protection (Sometimes)—AUROC: 0.59313 [0.58866, 0.5976]R²: 0.03328
Incremental AUROC (full-covars): 0.00692
PGS R2 (no covariates): 0.00443
PGS AUROC (no covariates): 0.53162 [0.52709, 0.53614]		age, sex, UKB array type, Genotype PCsFull Model & PGS R2 is estimated using Nagelkerke's method
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Evaluated Samples

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PGS Sample Set ID
(PSS)
Phenotype Definitions and Methods
Participant Follow-up Time
Sample Numbers
Age of Study Participants
Sample Ancestry
Additional Ancestry Description
Cohort(s)
Additional Sample/Cohort Information
PSS003830——
[
  • 1,944 cases
  • , 4,329 controls
]
—African unspecified—UKB—
PSS003831——
[
  • 762 cases
  • , 890 controls
]
—East Asian—UKB—
PSS003832——
[
  • 8,425 cases
  • , 16,443 controls
]
—Europeannon-white British ancestryUKB—
PSS003833——
[
  • 2,556 cases
  • , 4,840 controls
]
—South Asian—UKB—
PSS003834——
[
  • 23,767 cases
  • , 43,620 controls
]
—Europeanwhite British ancestryUKBTesting cohort (heldout set)
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